Histone_ChIP-seq_ENCSR000AKU
Histone_ChIP-seq ENCSR000AKU [biosample_summary="Homo sapiens K562" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000AKU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000AKU [biosamplesummary="Homo sapiens K562" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN221DTY|/analyses/ENCAN221DTY/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN221DTY|/analyses/ENCAN221DTY/} has in progress subobject document {5ff4d0e0-8492-491f-a224-34366a00de7f|/documents/5ff4d0e0-8492-491f-a224-34366a00de7f/} audit_not_compliant: Processed alignments file {ENCFF564SVK|/files/ENCFF564SVK/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 6873902 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me3-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_warning: Processed alignments file {ENCFF685PPQ|/files/ENCFF685PPQ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 11454698 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me3-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.8 is acceptable. ENCODE processed alignments file {ENCFF685PPQ|/files/ENCFF685PPQ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. audit_warning: PBC2 (PCR Bottlenecking Coefficient 2, M1/M2) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where two reads map uniquely (M2). A PBC2 value in the range 0 - 1 is severe bottlenecking, 1 - 3 is moderate bottlenecking, 3 - 10 is mild bottlenecking, > 10 is no bottlenecking. PBC2 value > 10 is recommended, but > 3 is acceptable. ENCODE processed alignments file {ENCFF685PPQ|/files/ENCFF685PPQ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.45. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000AKU | float |
Histone_ChIP-seq_ENCSR000AKU |
Histone_ChIP-seq ENCSR000AKU [biosample_summary="Homo sapiens K562" and target="H3K4me3"]
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[2.08, 50.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF689QIJ.bed.gz | 1.06 MB | 5dea2993c0831ae344a989d601c09178 |
| ENCFF689QIJ.bed.gz.dvc | 101.0 B | d77e7191ff7b7c37aad0f222bbfd5a6f |
| ENCFF689QIJ.tabix.bed.gz | 478.05 KB | a16a515f2b44b2b224c3e9eb278bcc00 |
| ENCFF689QIJ.tabix.bed.gz.dvc | 106.0 B | 2280b81047ef6da461023594175e035b |
| ENCFF689QIJ.tabix.bed.gz.tbi | 185.13 KB | 76189a548aa452d290636f93764c36da |
| ENCFF689QIJ.tabix.bed.gz.tbi.dvc | 110.0 B | 3c89677ea08dd1352c5fbf2315082b08 |
| genomic_resource.yaml | 4.06 KB | bf7622a9958ed78045a28cd607058bb0 |
| genomic_resource_original.yaml | 3.95 KB | 310c4162d35c1e90bb55eb288df593f3 |
| statistics/ |